preprocess_cds running for hours

[alicerlam]

Hi!

When I try to run preprocess_cds on my data (~50k cells, ~41k genes), it runs for hours without completing, as shown below:

I've checked that my matrix is sparse (I created the cell data set object from a 10x matrix) and that my kernel is not frozen. Am I missing another preparation step somewhere? I've also tried to import the same dataset from a Seurat object using SeuratWrappers, and have run into the same issue.

[gsx-ucas]

Same problem.
install.packages("irlba") reinstall irlba solved the issue.